genome.fa.s9.2.7.7.80.10.50.1000.76.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   

This is table  76  of  97  ( 11551 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30270092--30270210	60	2.0	57	93	6	211	18	11	19	49	1.77
30270156--30270251	41	2.4	40	85	11	119	20	10	19	48	1.78
30270156--30270277	38	3.1	37	78	10	127	21	13	18	45	1.84
30270302--30270553	1	252.0	1	70	0	162	84	11	3	0	0.77
30270302--30270551	18	13.9	17	77	15	204	84	11	3	0	0.77
30270302--30270552	12	19.7	12	79	13	229	84	11	3	0	0.77
30270302--30270553	19	13.7	18	75	21	213	84	11	3	0	0.77
30271572--30271639	34	2.0	34	100	0	136	47	8	35	8	1.66
30272365--30272440	16	4.8	15	69	12	53	76	1	6	15	1.06
30272405--30272444	8	5.0	8	81	0	53	82	2	0	15	0.77
30275242--30275335	29	3.2	30	77	10	88	45	8	12	32	1.73
30275289--30275445	78	2.0	77	84	7	201	37	4	15	42	1.67
30281105--30281165	30	2.1	29	87	3	86	39	13	18	29	1.88
30287582--30288491	237	3.8	237	97	0	1696	29	15	17	37	1.91
30288438--30288802	87	4.2	87	87	1	486	26	23	14	34	1.94
30291707--30291755	22	2.2	22	85	0	62	22	12	24	40	1.88
30291796--30291844	22	2.2	22	96	0	89	18	10	24	46	1.79
30291897--30292154	26	10.6	26	70	14	140	41	24	9	24	1.84
30291886--30292154	95	2.8	95	85	2	378	40	24	9	24	1.85
30292136--30292185	22	2.3	23	79	10	59	50	18	10	22	1.76
30292311--30292349	19	2.0	21	90	10	64	51	17	5	25	1.66
30298137--30298250	49	2.3	49	98	0	219	40	21	0	38	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30298412--30298444	17	1.9	17	88	11	50	78	3	9	9	1.05
30313614--30313652	21	1.9	20	84	5	51	69	5	25	0	1.09
30337904--30337952	12	4.0	12	82	15	64	79	0	2	18	0.83
30338587--30338681	35	2.8	33	76	9	93	12	26	15	45	1.82
30338578--30338681	33	3.1	33	74	10	111	14	25	16	43	1.86
30339046--30339106	23	2.6	23	86	2	86	40	9	9	39	1.72
30343009--30343043	2	17.5	2	100	0	70	48	0	0	51	1.00
30346393--30346439	2	23.5	2	100	0	94	51	0	0	48	1.00
30346909--30346938	15	2.0	15	93	0	51	30	0	0	70	0.88
30349126--30349308	101	1.8	101	90	0	294	37	14	16	31	1.90
30349499--30349545	23	2.0	23	84	8	60	29	0	6	63	1.19
30349945--30350146	101	2.0	100	99	0	395	19	19	19	40	1.91
30354647--30354726	38	2.1	38	85	0	106	32	15	32	20	1.93
30357681--30357748	34	2.0	34	91	0	109	19	19	17	44	1.88
30360805--30360833	12	2.5	12	94	5	51	51	13	0	34	1.42
30371228--30371269	14	3.0	14	82	6	50	52	0	0	47	1.00
30371660--30371697	20	1.9	20	94	0	67	28	7	21	42	1.81
30379732--30379869	36	3.8	36	80	3	161	44	18	24	13	1.85
30379732--30379867	72	1.9	72	86	3	193	44	17	25	13	1.85
30389914--30389956	21	2.0	21	81	0	50	30	9	37	23	1.86
30390346--30390389	22	2.0	22	95	0	79	43	22	2	31	1.66
30395565--30395816	129	2.0	129	91	1	407	29	14	16	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30404165--30404198	17	1.9	18	88	5	52	50	0	8	41	1.34
30404284--30404332	2	25.5	2	82	15	59	55	2	0	42	1.11
30404284--30404332	7	6.4	8	84	13	59	55	2	0	42	1.11
30404284--30404338	18	2.9	18	78	17	58	58	1	0	40	1.09
30407401--30407432	16	2.0	16	93	0	55	40	12	9	37	1.75
30407399--30407656	72	3.6	70	71	14	220	36	9	10	43	1.71
30407439--30407503	34	2.0	33	93	6	114	35	9	12	43	1.74
30407454--30407504	16	3.1	16	72	16	50	37	11	9	41	1.75
30407384--30407686	145	2.1	146	94	0	527	37	8	9	44	1.68
30407600--30407649	18	2.9	17	77	16	59	36	10	10	44	1.72
30407583--30407649	34	2.0	33	88	5	100	35	7	11	44	1.70
30414327--30414395	30	2.3	30	87	5	104	53	4	28	13	1.58
30414327--30414395	15	4.6	14	71	18	59	53	4	28	13	1.58
30415121--30415146	9	2.9	9	100	0	52	23	0	11	65	1.25
30416617--30416648	15	2.1	15	100	0	64	31	18	6	43	1.75
30432766--30432897	25	5.3	24	81	8	149	29	15	3	51	1.59
30432754--30432897	50	2.9	49	87	2	189	29	15	4	51	1.62
30435460--30435503	22	2.0	22	83	16	56	9	18	0	72	1.10
30449809--30449834	6	4.3	6	100	0	52	0	15	0	84	0.62
30451055--30451079	2	12.5	2	100	0	50	48	0	0	52	1.00
30451381--30451411	15	2.1	15	93	0	53	3	6	3	87	0.75
30461120--30461196	24	3.2	23	81	7	66	57	10	10	22	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30461120--30461178	24	2.5	24	81	10	68	57	10	8	23	1.59
30461141--30461198	12	4.8	12	72	8	55	55	12	12	20	1.68
30461562--30461587	13	2.0	13	100	0	52	76	0	0	23	0.78
30461574--30461667	46	2.1	45	82	4	109	67	1	5	25	1.18
30461904--30461938	15	2.3	15	90	0	52	37	20	5	37	1.76
30493160--30493194	15	2.2	16	90	5	54	71	5	8	14	1.29
30493160--30493199	15	2.6	15	88	4	53	67	7	7	17	1.38
30498448--30498623	67	2.6	67	87	3	248	25	11	26	36	1.91
30498448--30498609	35	4.9	32	71	15	114	25	12	25	35	1.92
30500924--30501138	39	5.6	39	80	9	210	24	10	37	27	1.88
30501007--30501138	36	3.5	39	77	14	116	23	9	40	27	1.85
30502942--30502968	14	1.9	14	100	0	54	59	11	0	29	1.32
30509877--30509906	7	4.1	7	91	8	51	16	13	0	70	1.18
30509870--30509932	25	2.5	26	81	2	65	17	7	1	73	1.16
30509880--30509932	26	2.1	26	82	3	63	16	5	1	75	1.08
30515307--30515355	17	3.0	17	79	11	66	53	0	0	46	1.00
30515409--30515462	28	2.0	26	85	7	72	51	1	0	46	1.11
30521372--30521482	55	2.0	55	91	0	177	25	12	19	42	1.87
30521673--30521716	17	2.6	16	82	10	52	13	4	13	68	1.36
30526817--30526936	63	1.9	64	86	5	172	30	18	27	24	1.98
30532436--30532504	20	3.5	20	82	4	68	30	23	13	33	1.92
30535628--30535670	18	2.4	18	84	7	52	27	4	23	44	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30541185--30541225	20	2.0	20	86	9	57	39	29	2	29	1.70
30546990--30547097	54	2.0	54	96	0	198	18	23	19	38	1.93
30558088--30558112	12	2.1	12	100	0	50	24	8	20	48	1.76
30559067--30559228	64	2.5	63	84	6	211	22	8	15	54	1.67
30559958--30560036	40	2.0	40	89	0	122	29	7	12	50	1.68
30562793--30562945	76	2.0	76	91	2	245	30	24	16	27	1.97
30563398--30563428	15	2.1	15	93	0	53	61	0	38	0	0.96
30563405--30563445	18	2.3	18	86	0	55	65	2	29	2	1.18
30563542--30563621	28	2.7	30	79	15	94	46	3	1	48	1.28
30563738--30564737	355	2.9	349	80	10	1138	46	6	6	40	1.56
30564435--30564472	15	2.5	15	84	16	51	42	0	2	55	1.14
30568081--30568118	14	2.7	15	84	8	53	28	0	2	68	1.03
30568141--30568284	76	1.9	75	89	1	225	37	0	8	53	1.36
30575638--30575693	27	2.1	27	96	0	103	30	10	12	46	1.76
30589654--30589683	2	15.0	2	100	0	60	50	0	50	0	1.00
30596044--30596133	45	2.0	45	100	0	180	40	15	13	31	1.86
30605980--30606061	39	2.1	39	83	0	101	37	12	15	34	1.85
30606957--30606997	21	2.0	21	95	0	73	75	0	17	7	1.02
30608000--30608143	29	5.1	27	77	8	119	38	11	7	41	1.70
30607981--30608143	86	1.9	86	83	5	213	39	11	7	41	1.69
30613578--30613897	35	9.1	35	82	3	358	35	7	14	43	1.73
30613578--30613895	71	4.5	71	86	2	385	35	7	14	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30616150--30616174	3	8.3	3	100	0	50	68	0	0	32	0.90
30618116--30618514	28	13.8	28	81	10	464	37	11	9	42	1.72
30618097--30618508	59	7.1	58	81	12	472	38	11	8	42	1.71
30618082--30618508	87	4.9	87	96	1	757	37	11	8	42	1.71
30619863--30619910	22	2.2	22	88	7	71	81	10	4	4	0.97
30619876--30619920	16	3.0	14	78	15	54	82	8	6	2	0.93
30623493--30623550	26	2.2	26	81	6	64	43	8	24	24	1.82
30634619--30634674	23	2.4	23	79	5	60	23	19	42	14	1.88
30660873--30660951	42	1.9	41	81	2	95	53	6	21	18	1.67
30661142--30661184	18	2.4	18	92	0	68	20	9	25	44	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97